Variant report

Variant	rs56920399
Chromosome Location	chr10:28470234-28470235
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:28468637..28470259-chr10:28476879..28479300,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs59019458	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61652850	1.00[AMR][1000 genomes]
rs73608060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73608064	1.00[AFR][1000 genomes]
rs73608066	0.97[AFR][1000 genomes]
rs73608069	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73608072	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73608086	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
8	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28449800-28497000	Weak transcription	Fetal Intestine Small	intestine
2	chr10:28467200-28470400	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr10:28467600-28470600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr10:28467600-28472600	Weak transcription	Fetal Stomach	stomach
5	chr10:28467600-28485400	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr10:28467600-28491800	Weak transcription	Psoas Muscle	Psoas
7	chr10:28467600-28525600	Weak transcription	Aorta	Aorta
8	chr10:28467800-28470600	Weak transcription	Osteobl	bone
9	chr10:28467800-28471000	Enhancers	Hela-S3	cervix
10	chr10:28467800-28495200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr10:28468200-28470400	Weak transcription	Colon Smooth Muscle	Colon
12	chr10:28468200-28470600	Weak transcription	Stomach Smooth Muscle	stomach
13	chr10:28468200-28471400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr10:28468200-28484600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr10:28468600-28470400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:28469000-28471400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr10:28469400-28471200	Enhancers	Muscle Satellite Cultured Cells	--
18	chr10:28469600-28471000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:28469600-28471000	Enhancers	HSMMtube	muscle
20	chr10:28469600-28471400	Enhancers	HSMM	muscle
21	chr10:28469800-28491000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr10:28470000-28485600	Weak transcription	Primary T cells from cord blood	blood
23	chr10:28470200-28470800	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr10:28470200-28471600	Enhancers	Fetal Heart	heart

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